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  • Argos
    Its main value is a collection of pre-tested and implemented common database/information service tools needed for organism database systems, wh common/
    12 KB (1,641 words) - 15:41, 16 July 2012
  • LuceGene
    ...and retrieval system specially tuned for bioinformatics text databases and documents. LuceGene is similar in concept to the widely used, commercially successful It includes common text search features: booleans, phrases, word stemming, fuzzy and field ran
    6 KB (792 words) - 15:09, 6 September 2010
  • GMOD Components
    ...templates to provide a consistent look and feel for all GMOD systems. The "common gene page" concept is in this group. ...ll as the components that implement a given interface are described in the documents linked at the end of this document.
    3 KB (425 words) - 19:55, 2 December 2013
  • LabDoc: Generic Laboratory Protocol Documentation System
    ...for displaying, editing, and searching Perl POD (Plain Ol' Documentation) documents.
    713 B (91 words) - 00:31, 16 February 2008
  • September 2003 GMOD Meeting
    including common genome tools and Internet information services, with Recent functional updates include common Perl (including BioPerl, XML
    28 KB (4,338 words) - 22:06, 29 October 2010
  • April 2004 GMOD Meeting
    The goal is to provide a common interface and common format to downstream PubTrack documents including schema, loading scripts, etc. can be found on
    42 KB (6,309 words) - 20:37, 30 November 2010
  • Chado Sequence Module
    You may find these related documents useful: In addition to having a name or symbol, it is common for features such as genes to have multiple
    64 KB (9,963 words) - 22:17, 18 December 2013
  • Chado Tables
    | '' ''<br /><br />The optional human-readable common name for a feature, for display purposes. ...tionship ontology, although other relationship types are allowed. The most common relationship type is OBO_REL:part_of. Valid relationship types are constrai
    121 KB (17,433 words) - 21:13, 2 November 2012
  • Chado XML
    ...ighly configurable, via ''dumpspecs''. There are a number of dumpspecs for common queries (e.g. fetching a region-of-interest around a gene or contig) - or y Documents conforming to standard Chado-XML must conform to the model specified by cha
    10 KB (1,539 words) - 21:16, 9 October 2012
  • Chado Tutorial 2010
    You ''can'' do basics with Chado without knowing SQL. Many common tasks already have scripts written for them. However, as you get more into ...atures, themselves localized to a transcript (or to the genome, as is more common). Chains may also span sequence alignments.
    54 KB (8,190 words) - 23:34, 8 October 2012
  • Genome grid
    ...nfrastructure (Grids or clusters). Here within are collections of scripts, documents and workflows for employing existing genome analysis tools (BLAST, homology ...s/her analyses on these systems. Analysis pipelines may be involved (more common at large sequencing centers), but are often home-grown creations without a
    7 KB (1,032 words) - 22:42, 15 September 2009
  • Common Gene Page
    =Common Gene Page Rationale= gene data, and may benefit from looking at unifying these to common
    7 KB (1,051 words) - 19:24, 4 September 2013
  • January 2009 GMOD Meeting
    A common question during these talks was how much should we do? Should we implement ...Chado best practices. Common practices would enable both data sharing and common tools. Joshua got the ball rolling by describing IGS's Chado practices on
    50 KB (7,612 words) - 18:53, 8 October 2012
  • GMOD Evo Hackathon
    :Worked on establishing a common database backend and {{GlossaryLink|JSON|JSON}}-based API for comparative g ...GMOD project originated from the goal of developing a generic tool set for common needs among model organism databases, GMOD tools are meanwhile used by many
    17 KB (2,407 words) - 13:22, 13 November 2015
  • JBrowse Tutorial 2010
    $ cd ~/Documents/Software $ bzip2 -cd ~/Documents/Software/schema/chado/complete_db.bz2 | psql chado
    9 KB (1,327 words) - 22:46, 3 October 2012
  • September 2010 GMOD Meeting
    | [http://psicquic.googlecode.com PSICQUIC]: The PSI Common QUery Interface | [[Media:PSICQUICSept2010.pdf|PDF]], [[#PSICQUIC: The PSI Common QUery Interface|Summary]]
    100 KB (14,725 words) - 17:31, 30 November 2012
  • GBrowse 2.0 Install HOWTO
    Directory for GBrowse's static images & HTML files? [/Library/Webserver/Documents/gbrowse2] /opt/local/apache2/htdocs/gbrowse2 Directory for GBrowse's example databases [/Library/Webserver/Documents/gbrowse2/databases] /opt/local/apache2/htdocs/gbrowse2/databases
    14 KB (2,116 words) - 20:00, 22 February 2012
  • GSoC/IDEA 9
    I suggest you start work immediately, researching the common assembly *documents* that have kind of a looser structure
    12 KB (1,905 words) - 20:08, 5 April 2011
  • Apollo Tutorial 2011
    The Linux installer is a shell script. If we want to install Apollo to the common application locations (such as <tt>/usr/local/bin</tt>), we'll need root ac $ <span class="enter">cd ~/Documents/Software/installers</span>
    34 KB (5,242 words) - 00:21, 14 February 2013
  • Tripal Tutorial v1.1
    In a CMS, data can be defined as nearly anything: documents, movies, pictures, phone numbers, scientific data, and so forth. CMSs are f # You want to use a community-supported common database infrastrcure (i.e. Chado).
    131 KB (21,091 words) - 21:53, 2 January 2014
  • Tripal Tutorial (v1.0)
    In a CMS, data can be defined as nearly anything: documents, movies, pictures, phone numbers, scientific data, and so forth. CMSs are f * Common name: Sweet orange
    99 KB (16,007 words) - 17:43, 12 July 2013
  • JBrowse Tutorial 2013
    bzip2 -cd ~/Documents/Software/schema/chado/complete_db.bz2 | psql chado == Common Problems ==
    14 KB (1,948 words) - 20:48, 27 August 2013
  • Apollo Tutorial 2010
    The Linux installer is a shell script. If we want to install Apollo to the common application locations (such as <tt>/usr/local/bin</tt>), we'll need root ac $ <span class="enter">cd ~/Documents/Software/installers</span>
    34 KB (5,278 words) - 22:36, 12 February 2013
  • Chado Tutorial 2011
    You ''can'' do basics with Chado without knowing SQL. Many common tasks already have scripts written for them. However, as you get more into ...atures, themselves localized to a transcript (or to the genome, as is more common). Chains may also span sequence alignments.
    53 KB (8,083 words) - 20:52, 27 August 2013
  • InterMine Tutorial 2011
    ...nts/Software/intermine/bio/sources/example-sources/malaria-gff /home/gmod/Documents/Software/intermine/bio/sources/ ~/Documents/Software/intermine/bio/tutorial/malariamine/malaria-data.tar.gz
    43 KB (6,258 words) - 17:56, 14 February 2013
  • JBrowse Tutorial 2011
    $ cd ~/Documents/Software $ bzip2 -cd ~/Documents/Software/schema/chado/complete_db.bz2 | psql chado
    9 KB (1,328 words) - 17:58, 14 February 2013
  • JBrowse FAQ
    The most common feature track to use is a GFF file Common types of requests
    65 KB (10,432 words) - 15:23, 16 September 2020
  • GMOD Malaysia 2014/JBrowse Tutorial
    bzip2 -cd ~/Documents/Software/schema/chado/complete_db.bz2 | psql chado == Common Problems ==
    14 KB (1,931 words) - 00:01, 20 February 2014
  • GMOD Malaysia 2014/Tripal Tutorial
    In a CMS, data can be defined as nearly anything: documents, movies, pictures, phone numbers, scientific data, and so forth. CMSs are f # You want to use a community-supported common database infrastrcure (i.e. Chado).
    131 KB (21,099 words) - 00:18, 20 February 2014
  • GMOD Online Training 2014/JBrowse Tutorial
    bzip2 -cd ~/Documents/Software/schema/chado/complete_db.bz2 | psql chado == Common Problems ==
    13 KB (1,905 words) - 14:21, 21 May 2014

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